Basic Information
VIS ID
TVIS30006046
Fusion event
HIV-C12orf4 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr12
Cytoband
p13.32
Reference genome
GRCh37/hg19
Start
4617708/4508542 (Hg38)
End
4617708/4508542 (Hg38)
Orient
-
Location type
Intronic
Target gene
C12orf4
miRNAs that regulate target gene
hsa-mir-196a-5p ; hsa-let-7d-5p ; hsa-mir-1261 ; hsa-mir-4635 ; hsa-mir-526b-5p ; hsa-mir-4503 ; hsa-mir-877-5p ; hsa-mir-6792-5p ; hsa-mir-4696 ; hsa-mir-4451 ; hsa-mir-4500 ; hsa-mir-98-5p ; hsa-mir-4458 ; hsa-let-7i-5p ; hsa-let-7g-5p ; hsa-let-7f-5p ; hsa-let-7e-5p ; hsa-let-7c-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-4790-3p ; hsa-mir-6831-5p ; hsa-mir-3927-3p ; hsa-mir-6859-5p ; hsa-mir-3916 ; hsa-mir-3125
Nearest miRNA
hsa-mir-3649/Upstream/2848162; hsa-let-7i/Downstream/2455157;
Nearest TSS
ENST00000382841/Upstream/62928; ENST00000538817/Downstream/808;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/63084, chr12-CpG: 20/Downstream/30136
Upstream sequence
ATAAGAAATAATTAAATACTTgccaggtgcagtggctcatgcctgtaatcccagcactttgggaggccaaggtgggcagatcacatgaggccaggagttt
Downstream sequence
gagaacagtctggccaacatggcaaaaccccgtctctattaaaaatacaaaaattagccaggcacggtggtacacatctgtaatcccagctactcaggag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate